INFO 2025-06-26 14:39:18,095 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2005 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 14:39:18,095 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - On N-S line by M0 for ESP deployment - very short mission - one Gulper fired Returns 'Error in plot_sections (line 852)' when reprocessing attemped on 29 May 2018 - ctdToUse = ctd2 INFO 2025-06-26 14:39:18,095 process.py process_mission():449 [1] Processing AUVCTD mission 2009.111.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 14:39:18,095 process.py download_process():165 [1] Download and processing steps for 2009.111.00 INFO 2025-06-26 14:39:18,096 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2009/2009111/2009.111.00 INFO 2025-06-26 14:39:18,096 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2009/2009111/2009.111.00 to /data/auv_data/dorado/missionlogs/2009.111.00 INFO 2025-06-26 14:39:18,661 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2009.111.00 INFO 2025-06-26 14:39:18,661 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/ctdDriver.log (79244 bytes) INFO 2025-06-26 14:39:18,674 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/ctdDriver2.log (76509 bytes) INFO 2025-06-26 14:39:18,685 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/gps.log (20084 bytes) INFO 2025-06-26 14:39:18,695 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/hydroscatlog.log (88810 bytes) INFO 2025-06-26 14:39:18,711 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/navigation.log (278134 bytes) INFO 2025-06-26 14:39:18,742 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/isuslog.log (5365 bytes) INFO 2025-06-26 14:39:18,746 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2009.111.00/isuslog.log: [1 2 3 4 5 6 7 8] INFO 2025-06-26 14:39:18,746 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/parosci.log (109430 bytes) INFO 2025-06-26 14:39:18,759 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/tailCone.log (16267 bytes) INFO 2025-06-26 14:39:18,767 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/biolume.log (75484 bytes) INFO 2025-06-26 14:39:18,777 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 14:39:18,783 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.12 seconds INFO 2025-06-26 14:39:18,783 process.py download_process():198 [1] Processing file /data/auv_data/dorado/missionlogs/2009.111.00/lopc.bin (148995 bytes) INFO 2025-06-26 14:39:18,783 lopcToNetCDF.py main():2297 [1] Processing begun: Thu Jun 26 14:39:18 2025 INFO 2025-06-26 14:39:18,783 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2009.111.00/parosci.nc INFO 2025-06-26 14:39:18,783 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 14:39:18,783 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2009.111.00/parosci.nc INFO 2025-06-26 14:39:18,785 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1240348424.8, sensor_off_time = 1240348691.1 INFO 2025-06-26 14:39:18,785 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 266 seconds. Expecting to read 532 L frames from the lopc.bin file. INFO 2025-06-26 14:39:18,785 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 532 records from the lopc.bin file. INFO 2025-06-26 14:39:18,788 lopcToNetCDF.py main():2321 [1] Examined sibling parosci.nc file to find startTime = 2009-04-21 21:13:44 Z and endTime = 2009-04-21 21:18:11 Z with 532 records expected to be read from lopc.bin INFO 2025-06-26 14:39:18,788 lopcToNetCDF.py unpackLOPCbin():723 [1] >>> Unpacking LOPC data from /data/auv_data/dorado/missionlogs/2009.111.00/lopc.bin INFO 2025-06-26 14:39:18,788 lopcToNetCDF.py unpackLOPCbin():724 [1] >>> Will write to NetCDF file /data/auv_data/dorado/missionnetcdfs/2009.111.00/lopc.nc INFO 2025-06-26 14:39:18,788 lopcToNetCDF.py openNetCDFFile():1861 [1] Will output NetCDF file to /data/auv_data/dorado/missionnetcdfs/2009.111.00/lopc.nc INFO 2025-06-26 14:39:18,789 lopcToNetCDF.py openNetCDFFile():1887 [1] missionName = 2009.111.00 INFO 2025-06-26 14:39:18,789 lopcToNetCDF.py openNetCDFFile():1910 [1] Writing bin axis for len(self.dataStructure['binSizeList']) = 994 INFO 2025-06-26 14:39:18,816 lopcToNetCDF.py unpackLOPCbin():951 [1] L Frames sample M Frames ShortLFrame LBeforeMEnd MBeforeLEnd UnknownFrame Garbled L INFO 2025-06-26 14:39:18,816 lopcToNetCDF.py unpackLOPCbin():969 [1] Count Count Count Error Error Error Error Error INFO 2025-06-26 14:39:18,817 lopcToNetCDF.py unpackLOPCbin():987 [1] -------- -------- -------- ----------- ----------- ----------- ----------- ------------ INFO 2025-06-26 14:39:18,920 lopcToNetCDF.py main():2345 [1] >>> Done reading file. INFO 2025-06-26 14:39:18,920 lopcToNetCDF.py main():2346 [1] lFrameCount = 534, mFrameCount = 0 INFO 2025-06-26 14:39:18,920 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2009.111.00/parosci.nc INFO 2025-06-26 14:39:18,920 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 14:39:18,920 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2009.111.00/parosci.nc INFO 2025-06-26 14:39:18,922 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1240348424.8, sensor_off_time = 1240348691.1 INFO 2025-06-26 14:39:18,922 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 266 seconds. Expecting to read 532 L frames from the lopc.bin file. INFO 2025-06-26 14:39:18,922 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 532 records from the lopc.bin file. INFO 2025-06-26 14:39:18,922 lopcToNetCDF.py constructTimestampList():1340 [1] Calling correctSampleCountList() with sampleCountList[0] = 1 and len(sampleCountList) = 534 INFO 2025-06-26 14:39:18,922 lopcToNetCDF.py correctSampleCountList():1737 [1] Found overflows at indices: [] INFO 2025-06-26 14:39:18,922 lopcToNetCDF.py correctSampleCountList():1745 [1] Original sampleCountList = [ 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 493 494 495 496 497 498 499 500 501 502 503 504 505 506 507 508 509 510 511 512 513 514 515 516 517 518 519 520 521 522 523 524 525 526 527 528 529 530 531 532 533 534] INFO 2025-06-26 14:39:18,924 lopcToNetCDF.py correctSampleCountList():1746 [1] Found 0 0 values at indices: [] INFO 2025-06-26 14:39:18,924 lopcToNetCDF.py correctSampleCountList():1779 [1] Found 0 stuck values at indices: [] INFO 2025-06-26 14:39:18,924 lopcToNetCDF.py deSpike():1588 [1] d_sampleCountList = [1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1] INFO 2025-06-26 14:39:18,926 lopcToNetCDF.py deSpike():1590 [1] Found 0 spike indicators at indices: [] INFO 2025-06-26 14:39:18,926 lopcToNetCDF.py correctSampleCountList():1805 [1] After despike() sampleCountList = [ 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 493 494 495 496 497 498 499 500 501 502 503 504 505 506 507 508 509 510 511 512 513 514 515 516 517 518 519 520 521 522 523 524 525 526 527 528 529 530 531 532 533 534] INFO 2025-06-26 14:39:18,928 lopcToNetCDF.py constructTimestampList():1347 [1] correctSampleCountList() returned correctedSampleCountList = [ 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 493 494 495 496 497 498 499 500 501 502 503 504 505 506 507 508 509 510 511 512 513 514 515 516 517 518 519 520 521 522 523 524 525 526 527 528 529 530 531 532 533 534] with len(correctedSampleCountList) = 534 INFO 2025-06-26 14:39:18,929 lopcToNetCDF.py constructTimestampList():1358 [1] Subtracting 1 from all values of correctedSampleCountList INFO 2025-06-26 14:39:18,929 lopcToNetCDF.py constructTimestampList():1363 [1] Constructing timestampArray from instrument corrected sampleCount and constant deltaT = 0.500000 INFO 2025-06-26 14:39:18,929 lopcToNetCDF.py constructTimestampList():1368 [1] New re-zeroed correctedSampleCountList = [ 0. 0.5 1. 1.5 2. 2.5 3. 3.5 4. 4.5 5. 5.5 6. 6.5 7. 7.5 8. 8.5 9. 9.5 10. 10.5 11. 11.5 12. 12.5 13. 13.5 14. 14.5 15. 15.5 16. 16.5 17. 17.5 18. 18.5 19. 19.5 20. 20.5 21. 21.5 22. 22.5 23. 23.5 24. 24.5 25. 25.5 26. 26.5 27. 27.5 28. 28.5 29. 29.5 30. 30.5 31. 31.5 32. 32.5 33. 33.5 34. 34.5 35. 35.5 36. 36.5 37. 37.5 38. 38.5 39. 39.5 40. 40.5 41. 41.5 42. 42.5 43. 43.5 44. 44.5 45. 45.5 46. 46.5 47. 47.5 48. 48.5 49. 49.5 50. 50.5 51. 51.5 52. 52.5 53. 53.5 54. 54.5 55. 55.5 56. 56.5 57. 57.5 58. 58.5 59. 59.5 60. 60.5 61. 61.5 62. 62.5 63. 63.5 64. 64.5 65. 65.5 66. 66.5 67. 67.5 68. 68.5 69. 69.5 70. 70.5 71. 71.5 72. 72.5 73. 73.5 74. 74.5 75. 75.5 76. 76.5 77. 77.5 78. 78.5 79. 79.5 80. 80.5 81. 81.5 82. 82.5 83. 83.5 84. 84.5 85. 85.5 86. 86.5 87. 87.5 88. 88.5 89. 89.5 90. 90.5 91. 91.5 92. 92.5 93. 93.5 94. 94.5 95. 95.5 96. 96.5 97. 97.5 98. 98.5 99. 99.5 100. 100.5 101. 101.5 102. 102.5 103. 103.5 104. 104.5 105. 105.5 106. 106.5 107. 107.5 108. 108.5 109. 109.5 110. 110.5 111. 111.5 112. 112.5 113. 113.5 114. 114.5 115. 115.5 116. 116.5 117. 117.5 118. 118.5 119. 119.5 120. 120.5 121. 121.5 122. 122.5 123. 123.5 124. 124.5 125. 125.5 126. 126.5 127. 127.5 128. 128.5 129. 129.5 130. 130.5 131. 131.5 132. 132.5 133. 133.5 134. 134.5 135. 135.5 136. 136.5 137. 137.5 138. 138.5 139. 139.5 140. 140.5 141. 141.5 142. 142.5 143. 143.5 144. 144.5 145. 145.5 146. 146.5 147. 147.5 148. 148.5 149. 149.5 150. 150.5 151. 151.5 152. 152.5 153. 153.5 154. 154.5 155. 155.5 156. 156.5 157. 157.5 158. 158.5 159. 159.5 160. 160.5 161. 161.5 162. 162.5 163. 163.5 164. 164.5 165. 165.5 166. 166.5 167. 167.5 168. 168.5 169. 169.5 170. 170.5 171. 171.5 172. 172.5 173. 173.5 174. 174.5 175. 175.5 176. 176.5 177. 177.5 178. 178.5 179. 179.5 180. 180.5 181. 181.5 182. 182.5 183. 183.5 184. 184.5 185. 185.5 186. 186.5 187. 187.5 188. 188.5 189. 189.5 190. 190.5 191. 191.5 192. 192.5 193. 193.5 194. 194.5 195. 195.5 196. 196.5 197. 197.5 198. 198.5 199. 199.5 200. 200.5 201. 201.5 202. 202.5 203. 203.5 204. 204.5 205. 205.5 206. 206.5 207. 207.5 208. 208.5 209. 209.5 210. 210.5 211. 211.5 212. 212.5 213. 213.5 214. 214.5 215. 215.5 216. 216.5 217. 217.5 218. 218.5 219. 219.5 220. 220.5 221. 221.5 222. 222.5 223. 223.5 224. 224.5 225. 225.5 226. 226.5 227. 227.5 228. 228.5 229. 229.5 230. 230.5 231. 231.5 232. 232.5 233. 233.5 234. 234.5 235. 235.5 236. 236.5 237. 237.5 238. 238.5 239. 239.5 240. 240.5 241. 241.5 242. 242.5 243. 243.5 244. 244.5 245. 245.5 246. 246.5 247. 247.5 248. 248.5 249. 249.5 250. 250.5 251. 251.5 252. 252.5 253. 253.5 254. 254.5 255. 255.5 256. 256.5 257. 257.5 258. 258.5 259. 259.5 260. 260.5 261. 261.5 262. 262.5 263. 263.5 264. 264.5 265. 265.5 266. 266.5] INFO 2025-06-26 14:39:18,938 lopcToNetCDF.py constructTimestampList():1379 [1] timestampArray = [1.24034842e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034843e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034844e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034845e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034846e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 1.24034847e+09 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1.24034867e+09 1.24034867e+09 1.24034867e+09 1.24034867e+09 1.24034867e+09 1.24034867e+09 1.24034867e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034868e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09 1.24034869e+09] INFO 2025-06-26 14:39:18,943 lopcToNetCDF.py constructTimestampList():1380 [1] timestampArray[:2] = [1240348424.8 1240348425.3, ..., timestampArray[-2:] = 1240348690.8 1240348691.3] INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1389 [1] timestampList[:2] = [np.float64(1240348424.8463233), np.float64(1240348425.3463233)], ..., timestampList[-2:] = [np.float64(1240348690.8463233), np.float64(1240348691.3463233)]] INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1394 [1] Subsampling correctedSampleCountList (len = 534) according to what got written to the netCDF file by the binning interval INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1399 [1] lFrameCountWrittenList[:2] = [20, 41], ... lFrameCountWrittenList[-2:] = [503, 524] INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1420 [1] len(subSampledCorrectedSampleCountList) = 25 INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1439 [1] len(timestampList) = 534 INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1440 [1] timestampList[:2] = [np.float64(1240348424.8463233), np.float64(1240348425.3463233)], ..., timestampList[-2:] = [np.float64(1240348690.8463233), np.float64(1240348691.3463233)]] INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1446 [1] Subsampling timestampList (len = 534) according to what got written to the netCDF file by the binning interval INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1457 [1] Taking indices [[np.int32(19), np.int32(40)] ... [np.int32(502), np.int32(523)]] from timestampList to create subSampledTimestampList INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1463 [1] len(subSampledTimestampList) = 25 INFO 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1477 [1] Finding elements of cFrameEsecsList that != -9999 ERROR 2025-06-26 14:39:18,944 lopcToNetCDF.py constructTimestampList():1501 [1] Cannot interpolate to cFrameEsecsListInterpolated: array of sample points is empty INFO 2025-06-26 14:39:18,946 lopcToNetCDF.py closeNetCDFFile():2096 [1] Writing time axis for len(tsList) = 25 INFO 2025-06-26 14:39:18,946 lopcToNetCDF.py closeNetCDFFile():2099 [1] tsList[:1] = [np.float64(1240348434.3463233)], ..., tsList[-2:] = [np.float64(1240348675.8463233), np.float64(1240348686.3463233)] INFO 2025-06-26 14:39:18,946 lopcToNetCDF.py closeNetCDFFile():2100 [1] Begin time = 2009-04-21 21:13:54 Z INFO 2025-06-26 14:39:18,946 lopcToNetCDF.py closeNetCDFFile():2103 [1] End time = 2009-04-21 21:18:06 Z INFO 2025-06-26 14:39:18,946 lopcToNetCDF.py closeNetCDFFile():2107 [1] Writing time axis for len(cFrameEsecsList) = 534 INFO 2025-06-26 14:39:18,946 lopcToNetCDF.py closeNetCDFFile():2111 [1] cFrameEsecsList[:1] = [-9999], ..., cFrameEsecsList[-2:] = [-9999, -9999] INFO 2025-06-26 14:39:18,946 lopcToNetCDF.py closeNetCDFFile():2116 [1] Begin time = 1969-12-31 21:13:21 Z INFO 2025-06-26 14:39:18,946 lopcToNetCDF.py closeNetCDFFile():2120 [1] End time = 1969-12-31 21:13:21 Z INFO 2025-06-26 14:39:18,950 lopcToNetCDF.py main():2381 [1] Created file: /data/auv_data/dorado/missionnetcdfs/2009.111.00/lopc.nc INFO 2025-06-26 14:39:18,950 lopcToNetCDF.py main():2384 [1] Processing finished: Thu Jun 26 14:39:18 2025 Elapsed processing time from start of processing = 0 seconds INFO 2025-06-26 14:39:18,950 process.py calibrate():227 [1] Calibration steps for 2009.111.00 INFO 2025-06-26 14:39:19,010 calibrate.py _navigation_process():1584 [1] Bypassing Nav QC depth check INFO 2025-06-26 14:39:19,014 calibrate.py _nudge_pos():1680 [1] seg# end_sec_diff end_lon_diff end_lat_diff len(segi) seg_min u_drift (cm/s) v_drift (cm/s) start datetime of segment INFO 2025-06-26 14:39:19,015 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 14:39:21,192 calibrate.py _nudge_pos():1862 [1] 234: - - - 4 0.01 - - INFO 2025-06-26 14:39:21,193 calibrate.py _nudge_pos():1868 [1] Points in final series = 1164 WARNING 2025-06-26 14:39:21,198 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 14:39:21,223 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:39:21,251 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 42 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:39:21,259 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 42 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 14:39:21,260 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2009.111.00/ctd1.nc INFO 2025-06-26 14:39:21,261 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 14:39:21,262 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 14:39:21,262 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 14:39:21,282 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 50 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 14:39:21,291 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 50 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 14:39:21,292 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2009.111.00/ctd2.nc WARNING 2025-06-26 14:39:21,293 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (862) ctd2_salinity values found outside of range. This may indicate a problem with the ctd2 data. INFO 2025-06-26 14:39:21,293 calibrate.py _range_qc_combined_nc():898 [1] Setting 862 ctd2_salinity values to NaN INFO 2025-06-26 14:39:21,293 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 14:39:21,294 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 14:39:21,307 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 14:39:21,323 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 14:39:21,327 calibrate.py process_logs():3548 [1] Error processing biolume: missing variable "No variable named 'avg_biolume'. Variables on the dataset include ['time', 'rrr', 'cal_striing', 'pump', 'flow', 'humidity', 'temperature', 'time60hz', 'raw']" ERROR 2025-06-26 14:39:21,336 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2009.111.00 INFO 2025-06-26 14:39:21,340 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_cal.nc INFO 2025-06-26 14:39:21,381 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, lopc_LCcount, lopc_countListSum, lopc_flowSpeed, lopc_nonTransCount, lopc_time, lopc_transCount, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 14:39:21,386 process.py align():251 [1] Alignment steps for 2009.111.00 INFO 2025-06-26 14:39:21,407 align.py process_cal():139 [1] Processing dorado_2009.111.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2009.111.00 INFO 2025-06-26 14:39:21,412 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:39:21,413 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:39:21,422 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:39:21,424 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:39:21,431 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:39:21,433 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:39:21,438 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 14:39:21,438 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 14:39:21,441 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 14:39:21,442 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 14:39:21,451 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,452 align.py process_cal():249 [1] hs2_bbp420: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,461 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,463 align.py process_cal():249 [1] hs2_bbp700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,471 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,472 align.py process_cal():249 [1] hs2_fl700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,480 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,482 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,490 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,492 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,500 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,502 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,510 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,512 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,520 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,522 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,530 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,532 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,540 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,542 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,551 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,552 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,561 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,563 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,571 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,572 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,581 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,583 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,592 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,594 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,602 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,604 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,613 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,615 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,624 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,625 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,634 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,636 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,645 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2009.111.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 14:39:21,647 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 14:39:21,658 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.74 INFO 2025-06-26 14:39:21,670 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.74 INFO 2025-06-26 14:39:21,681 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.74 INFO 2025-06-26 14:39:21,693 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 14:39:21,706 align.py process_cal():249 [1] lopc_countListSum: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 14:39:21,718 align.py process_cal():249 [1] lopc_transCount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 14:39:21,730 align.py process_cal():249 [1] lopc_nonTransCount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 14:39:21,743 align.py process_cal():249 [1] lopc_LCcount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 14:39:21,756 align.py process_cal():249 [1] lopc_flowSpeed: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 14:39:21,769 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.25 INFO 2025-06-26 14:39:21,779 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_align.nc INFO 2025-06-26 14:39:21,824 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, lopc_LCcount, lopc_countListSum, lopc_depth, lopc_flowSpeed, lopc_latitude, lopc_longitude, lopc_nonTransCount, lopc_time, lopc_transCount, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 14:39:21,826 process.py resample():273 [1] Resampling steps for 2009.111.00 INFO 2025-06-26 14:39:21,827 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 14:39:21,848 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_align.nc mission netCDF file INFO 2025-06-26 14:39:21,853 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_align.nc mission netCDF file INFO 2025-06-26 14:39:21,854 resample.py get_mission_start_end():1145 [1] navigation: 2009-04-21T21:14:17.324098304 to 2009-04-21T21:18:11.108082944 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 14:39:21,855 resample.py get_mission_start_end():1145 [1] hs2 : 2009-04-21T21:13:50.115962368 to 2009-04-21T21:18:11.118082304 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 14:39:21,857 resample.py get_mission_start_end():1145 [1] ctd1 : 2009-04-21T21:14:27.733385216 to 2009-04-21T21:18:10.978092032 (0 days 00:00:00.189986816 before mission_end) INFO 2025-06-26 14:39:21,858 resample.py get_mission_start_end():1145 [1] ctd2 : 2009-04-21T21:14:35.682840832 to 2009-04-21T21:18:11.168078848 (0 days 00:00:00 before mission_end) INFO 2025-06-26 14:39:21,859 resample.py get_mission_start_end():1145 [1] isus : 2009-04-21T21:14:46.012133120 to 2009-04-21T21:18:10.938094592 (0 days 00:00:00.229984256 before mission_end) INFO 2025-06-26 14:39:21,860 resample.py get_mission_start_end():1145 [1] biolume : 2009-04-21T21:13:44.006346496 to 2009-04-21T21:18:09.968126976 (0 days 00:00:01.199951872 before mission_end) INFO 2025-06-26 14:39:21,861 resample.py get_mission_start_end():1145 [1] lopc : 2009-04-21T21:13:54.346323200 to 2009-04-21T21:18:06.346323200 (0 days 00:00:04.821755648 before mission_end) INFO 2025-06-26 14:39:21,863 resample.py get_mission_start_end():1145 [1] tailcone : 2009-04-21T21:13:49.106031360 to 2009-04-21T21:18:10.808103680 (0 days 00:00:00.359975168 before mission_end) INFO 2025-06-26 14:39:21,863 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_align.nc mission netCDF file INFO 2025-06-26 14:39:21,863 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,892 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,900 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,907 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,915 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,923 resample.py resample_variable():1031 [1] Resampling hs2_bbp420 with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,931 resample.py resample_variable():1031 [1] Resampling hs2_bbp700 with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,938 resample.py resample_variable():1031 [1] Resampling hs2_fl700 with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,946 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,953 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,961 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,967 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,974 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,980 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,989 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:21,997 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,005 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,013 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,021 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,031 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,039 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,047 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,055 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,063 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,071 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,079 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,087 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,095 resample.py resample_variable():1031 [1] Resampling lopc_countListSum with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,103 resample.py resample_variable():1031 [1] Resampling lopc_transCount with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,111 resample.py resample_variable():1031 [1] Resampling lopc_nonTransCount with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,118 resample.py resample_variable():1031 [1] Resampling lopc_LCcount with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,126 resample.py resample_variable():1031 [1] Resampling lopc_flowSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,134 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 14:39:22,237 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_1S.nc INFO 2025-06-26 14:39:22,841 create_products.py gulper_odv():401 [1] No gulper times found for 2009.111.00 INFO 2025-06-26 14:39:22,842 process.py archive():337 [1] Archiving steps for 2009.111.00 INFO 2025-06-26 14:39:22,842 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00, BASE_PATH = /data/auv_data INFO 2025-06-26 14:39:22,842 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00 files to /Volumes/AUVCTD/surveys/2009/netcdf INFO 2025-06-26 14:39:22,843 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2009/netcdf/dorado_2009.111.00_1S.nc INFO 2025-06-26 14:39:22,850 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_1S.nc /Volumes/AUVCTD/surveys/2009/netcdf done. INFO 2025-06-26 14:39:22,850 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2009/netcdf/dorado_2009.111.00_cal.nc INFO 2025-06-26 14:39:22,858 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_cal.nc /Volumes/AUVCTD/surveys/2009/netcdf done. INFO 2025-06-26 14:39:22,858 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2009/netcdf/dorado_2009.111.00_align.nc INFO 2025-06-26 14:39:22,866 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_align.nc /Volumes/AUVCTD/surveys/2009/netcdf done. INFO 2025-06-26 14:39:22,872 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,877 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,880 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,885 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,889 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,893 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,897 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,901 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,906 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,912 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/lopc.nc /Volumes/AUVCTD/missionnetcdfs/2009/2009111/2009.111.00 done. INFO 2025-06-26 14:39:22,912 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 14:39:22,913 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2009.111.00/dorado_2009.111.00_processing.log /Volumes/AUVCTD/surveys/2009/netcdf